BAC Information

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BAC

Clone NameMSMg01-307A04
ChromosomeY (Build37)
Map Location 1,591,071 - 1,591,354
singlet/doubletsinglet
Overlap genenone
Upstream geneDdx3y, LOC100042763, LOC385246, Usp9y, LOC100039278, EG667079, LOC667089, Rhoay-ps1, Zfy2, Ube1y1-ps2
Downstream geneLOC667137, LOC100039373, LOC100039381, LOC667143, LOC100039401, LOC100039430, Vmn2r-ps137, LOC100039450, LOC547210, Ube1y1-ps1, Sry, LOC100042840, LOC100042849, LOC620228, LOC667181, Rbmy1a1, LOC667189, LOC100042874, LOC667194, LOC100042881, LOC667201, LOC100039546, Rhoay-ps2, LOC100039568, LOC100041505, LOC100039581, LOC676356, LOC667217, LOC100039613, LOC100041537, LOC667227, LOC667236
LinkOpen Mouse BAC browser



BAC End Information

BAC end BAC-end 1BAC-end 2
end nameMSMg01-307A04.T7 (MSMg01no307_a04.b1)MSMg01-307A04.TJ (MSMg01no307_a04.g1)
ACCAG431505AG431506
length739720
length of high quality
(start - end)
693 (47 - 739)662 (59 - 720)
definitionCHROMAT_FILE: MSMg01no307_a04.b1 PHD_FILE: MSMg01no307_a04.b1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:47:57 2005CHROMAT_FILE: MSMg01no307_a04.g1 PHD_FILE: MSMg01no307_a04.g1.phd.1 CHEM: term DYE: big TIME: Tue May 17 21:47:57 2005
singlet/doubletsinglet---
BLAST hituniqueno hit data
sequence
CTCAXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGCCGCG
GAATTCAAGAAATTTCCCCAGTTTTTTTGCGGTACAGTAGTGCTCTTGAC
AACATGGTCATCTATTCCCATTAAGATATCTTTTTAAGAAATCCAATATT
AACATGCAGAAAAGAGACCAGGTAGAAGTTAAGAAAGATTAAATTGATGG
TGACCTTTAAAAACAATAAAGGACACACAAAGGACTAGAGGACACCGAGG
GACAAATGAATTCTAAGATGCAGTTCTCAAAATGTGAAGCAGGAGACCCA
GGAAGAATAGAAATTTTGTGCAAATAGTTAAAATTGGGCATATCCACATT
AGGTTCTTTGGTTTCTTAACAAATAGCCAGCTGATCAGATCAAAGAGTAA
TTTAAAAGAGAAAATGAACAAACTGTGAGATAATATATGGTGGGGCGTGG
ATCCTGAGTTCTTTCCCTGTGCAATCTTTGCCTGGGATGAATCCTGTGAT
CTTTTGGAGTTCTCTGTTGAGTGCCCCAGATGACCATCAAAAAGCTCACC
ACTGGCCTGTTCCCCTGGCTCTCCTCCAAACATCTGACTCCCAACATACC
TATGTACCATTTCAGCCTGTCTATTCCCTGGAAATTCCTGTCTCAGATTT
ATGTGTGACCTCCTTCTCATAAAACAGTGAAGGTGTACTCAATGCATATG
TGCTGATCTCTTTTCTATGCCAGTTCTCATGGGTTTCAA
XXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXTTTCCCC
CCACTTCACTCCTAGTCACTCCCATTCTCGGGGTGTAATAGTGGGGTGAT
GGGCAAGCAATGAATCAGGAGCTGTCATGCCATATCAGGTGCTGAAACGT
CACACTGCTGGTTATAAAAGCAGTGCCATTTTCCCGGATCGGGATCTTCC
TGAGAAGCAATCAATAAAGCTCTTGCTGAGGAAGATTCTGGTTTGTTGCA
TCTTTCTTGCTGGTCGAGCTGGACGCAATAAGTGGTGCCAAAACCCGGGA
ACTGTCATCACACCGACGCAAGGAAGATCCCTCATTCACGGGGCAGAATC
AGAACTGTGGGACAAAAGGCTCTACAAGGTACGTACAATCTTGAAATTTC
CCCACAGTTAGAAGCCCTTTTGATTGTTTGCATGGCGATTACACTTTTCC
TTTTGGTTTCGTTTTGTTTCCACCACTGGAACAGTTGACTGGTTCTTAGT
CGCAGTCAGGCCTGGACAGCGCCTGGACAGCAACCAATTTCAGGCCCGGT
CAGGCCTGGACAGCGGCAGTATGGGAATCTCCCATTCTATAGTAGTGGGC
TTACGCTCAGTCCTGAAGCAGTGTGGCCTAAAAATCGCCACTAAGACCTA
AGAGGGATTTGTCAGAGAGATAGACCGTGTTGCACCATGGTATGCTTGCT
CATTGTCATTAACTGTCGCC
quality valuesOpen.Open.




Alignment Information

BAC End 1BAC End 2
Query= MSMg01no307_a04.b1 MSMg01no307_a04.b1 CHROMAT_FILE:
MSMg01no307_a04.b1 PHD_FILE: MSMg01no307_a04.b1.phd.1 CHEM: term DYE:
big TIME: Tue May 17 21:47:57 2005
         (693 letters)



>mm_chrY_1590465_1591558
          Length = 1094

 Score =  211 bits (109), Expect = 2e-58
 Identities = 244/289 (84%), Gaps = 11/289 (3%)
 Strand = Plus / Minus

                                                                       
Query: 407 cctgagttctttccctgtgcaatctttgcctgggatgaatcctgtgatcttttggagttc 466
           |||| |||| ||| ||| ||| |||||||||  |||||||||||||||  ||||||| ||
Sbjct: 890 cctgtgttccttcactgagcattctttgcctctgatgaatcctgtgat-atttggaggtc 832

                                                                       
Query: 467 tctgttgagtgccccagatgaccatcaaaaagctcac-cactggcctgttcc-cctg-gc 523
           |||| |||||||||||||||||||||||||||||| | ||||||  |||||| |||| | 
Sbjct: 831 tctgatgagtgccccagatgaccatcaaaaagctcccacactggtatgttccacctgag- 773

                                                                       
Query: 524 tctcctccaaacatctgact-cccaacatacctatgtacca-tttcagcctgtctattcc 581
            ||||||||||||| ||| | ||| ||||| |||| | ||| ||| ||| ||||||| ||
Sbjct: 772 actcctccaaacatatga-taccctacataactatatgccacttt-agcatgtctatccc 715

                                                                       
Query: 582 ctggaaattcctgtctcagatttatgtgtgacctccttctcataaaacagtgaaggtgta 641
           ||||||||||| ||||   |||||||||||||||| ||| || ||||||  ||||| |||
Sbjct: 714 ctggaaattccagtcttttatttatgtgtgacctcattcgcagaaaacaccgaaggggta 655

                                                            
Query: 642 -ctcaatgcatatgtgctgatctcttttctatgccagttctcatgggtt 689
            | ||||||||||||||||| |||||| ||||||||||| |||||||||
Sbjct: 654 tc-caatgcatatgtgctgacctctttcctatgccagttgtcatgggtt 607


Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.34    0.600     1.10 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 2, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 2
Number of extensions: 1
Number of successful extensions: 1
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 693
Length of database: 1094
Length adjustment: 10
Effective length of query: 683
Effective length of database: 1084
Effective search space:   740372
Effective search space used:   740372
X1: 8 (15.9 bits)
X2: 517 (999.5 bits)
X3: 517 (999.5 bits)
S1: 8 (16.4 bits)
S2: 8 (16.2 bits)